Pau Badia i Mompel
Pau Badia i Mompel
Hi, When trying to write the `mudata` object, `h5py` crashes due to some `.uns` values being `OrderedDict` instead of normal dictionaries. ``` TypeError: No method has been defined for writing...
Hi developers, Nice method and code/documentation! I was wondering how feasible is to apply ANANSE to single-cell multiomics data (RNA+ATAC): - For scalability, should I pseudobulk cells by cell type...
Hi, First of all I wanted to thank you for this amazing package, this implementation of Fisher's exact test is insanely fast! I'm developing a package and I would like...
Hi @soroorh, @ivirshup, @Zethson and @AnnaChristina, As discussed in #119, I've updated and reorganized the gene set enrichment chapter. In short, we start with an introduction to gene sets and...
# Enrichment analysis Hi, cool initiative! This will definitely be helpful for the community and for teaching in the university. I'm Pau, a PhD student from [saezlab](https://github.com/saezlab/). In our group...
When running multiple misty models across slides it would be good to have a function to aggregate them.
Recently I had a weird issue when running `snap.tl.macs3` on a cluster, my script would get stuck for a while and then throw an error related to parallelism issues: ```python...
### New Plotter Hi @Mr-Milk, I see that `marsilea` is taking off, congrats! ;) Would it be possible to add Lollipop plots, such as these:  I have tried using...
Sometimes, `build_grn` may return an empty list of `eRegulons`. This is more likely to occur when stricter thresholds are used for the parameters `min_target_genes`, `rho_threshold`, or `min_regions_per_gene`. To address this,...
Hi @hklarner, First let me tell you how happy I am that this package exists, the implementation is clean and the docs excellent, I really appreciate it! I am analyzing...